Locus 2614

Sequence ID 2L_DroMel_CAF1
Location 7,243,186 – 7,243,314
Length 128
Max. P 0.999954
window4164 window4165 window4166

overview

Window 4

Location 7,243,186 – 7,243,283
Length 97
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 85.52
Mean single sequence MFE -18.47
Consensus MFE -11.74
Energy contribution -11.58
Covariance contribution -0.16
Combinations/Pair 1.11
Mean z-score -2.46
Structure conservation index 0.64
SVM decision value 0.56
SVM RNA-class probability 0.780212
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7243186 97 - 22407834
UCCUGUGUAUUUAUCCAAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCAUCUUU-UUCAACACAUCCAACUUGUCCAUAGAAGACAAUAAAAGC
..(((((.((.......(((((((..(((((((((.........))))))))).....-..))).)))).......)).))))).............. ( -18.04)
>DroSec_CAF1 36380 97 - 1
UCCUGUGUAUUUAUCCAAUGUUUGUUUAACUGCAAUAUCUCACUUUGCAGUCAUCUUU-UUCAACACAUCCAACUUGUCCAUAGAAGACAAUAAAAGC
...(((((...((..((.....))..))(((((((.........))))))).......-....)))))......(((((.......)))))....... ( -13.80)
>DroSim_CAF1 37955 97 - 1
UCCUGUGUAUUUAUCCAAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCAUCUUU-UUCAACACAUCCAACUUGUCCAUAGAAUACAAUAAAGGC
.(((.(((((((..............(((((((((.........))))))))).....-......(((.......))).....)))))))....))). ( -19.90)
>DroEre_CAF1 36985 98 - 1
GCCUGUGCAUUAAUCCAAUUAUUGUUUGACUGCAAUAUCUCACUUUGCAGUGAGAUUUAUUCAACACCUCCAGCUUGUCCAUAGAUGGCAAAAAAUGC
(((...((...........((((((......))))))(((((((....))))))).................))..(((....))))))......... ( -18.30)
>DroYak_CAF1 36706 88 - 1
UCCUGUGCAUUUAUGCCAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCA----------UCUCAUCCCACACAUCCAUAGAUGACAAUAAAAGC
...(((.((((((((...(((.((..(((((((((.........)))))))))----------...))....)))....)))))))))))........ ( -22.30)
>consensus
UCCUGUGUAUUUAUCCAAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCAUCUUU_UUCAACACAUCCAACUUGUCCAUAGAAGACAAUAAAAGC
..(((((((..(((...)))..))..(((((((((.........)))))))))..........................))))).............. (-11.74 = -11.58 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,243,216 – 7,243,314
Length 98
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 74.20
Mean single sequence MFE -16.63
Consensus MFE -9.80
Energy contribution -10.13
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.59
SVM decision value 1.56
SVM RNA-class probability 0.963868
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7243216 98 + 22407834
UGUGUUGAA-AAAGAUGACUGCAAAGUGAGAUAUUGCAGUCAAACAAACAUUGGAUAAAUACACAGGAGGAAAAAGUGGAAUGGAAUAUAAUAAAAGAA---------
((((((...-.....(((((((((.........)))))))))...................(((...........)))......)))))).........--------- ( -14.80)
>DroEre_CAF1 37015 108 + 1
GGUGUUGAAUAAAUCUCACUGCAAAGUGAGAUAUUGCAGUCAAACAAUAAUUGGAUUAAUGCACAGGCGGAAAAAGUCAAAUGAAAUAUGGUCAAAACAAGUAUUCCA
.((.((((....((((((((....))))))))..((((.((((.......)))).....))))..(((.......))).............)))).)).......... ( -19.50)
>DroYak_CAF1 36736 89 + 1
UGAGA----------UGACUGCAAAGUGAGAUAUUGCAGUCAAACAAACAUGGCAUAAAUGCACAGGAGGAAAAAGUCUAAUAAAAUAUGGUAAAAGAA---------
..(((----------(((((((((.........)))))))).........(((((....))).))..........))))....................--------- ( -15.60)
>consensus
UGUGUUGAA_AAA__UGACUGCAAAGUGAGAUAUUGCAGUCAAACAAACAUUGGAUAAAUGCACAGGAGGAAAAAGUCAAAUGAAAUAUGGUAAAAGAA_________
...............(((((((((.........))))))))).................................................................. ( -9.80 = -10.13 +   0.33)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,243,216 – 7,243,314
Length 98
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 74.20
Mean single sequence MFE -15.63
Consensus MFE -10.33
Energy contribution -10.67
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.02
Structure conservation index 0.66
SVM decision value 4.83
SVM RNA-class probability 0.999954
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7243216 98 - 22407834
---------UUCUUUUAUUAUAUUCCAUUCCACUUUUUCCUCCUGUGUAUUUAUCCAAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCAUCUUU-UUCAACACA
---------...................................((((.......((.....))..(((((((((.........))))))))).....-....)))). ( -14.10)
>DroEre_CAF1 37015 108 - 1
UGGAAUACUUGUUUUGACCAUAUUUCAUUUGACUUUUUCCGCCUGUGCAUUAAUCCAAUUAUUGUUUGACUGCAAUAUCUCACUUUGCAGUGAGAUUUAUUCAACACC
.((((.....(((.(((.......)))...)))...))))....(((............((((((......))))))(((((((....))))))).........))). ( -18.50)
>DroYak_CAF1 36736 89 - 1
---------UUCUUUUACCAUAUUUUAUUAGACUUUUUCCUCCUGUGCAUUUAUGCCAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCA----------UCUCA
---------..................................((.(((....)))))........(((((((((.........)))))))))----------..... ( -14.30)
>consensus
_________UUCUUUUACCAUAUUUCAUUAGACUUUUUCCUCCUGUGCAUUUAUCCAAUGUUUGUUUGACUGCAAUAUCUCACUUUGCAGUCA__UUU_UUCAACACA
..................................................................(((((((((.........)))))))))............... (-10.33 = -10.67 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:58 2006